Jake,
Your bike has the sealed bearings, so its not as bad. The rod bearing is usually not the problem, more so the mains. Still, I'd undo the fuel line and flush the lower end with some gas through the carb before restarting. The filter will have to be removed and dried anyway.
We have a couple places where its possible to drown out in a fall but not a problem if you know the line across. I'm not lucky enough here to have such riding opportunuities where vast distances and unknown trail are issues, but if I did, I would let someone else go first in a water crossing.
When it happens in an enduro, you are almost always within a reasonable distance of road access, at least here.